Abstract
Heat stress (HS) causes detrimental effects on plant morphology, physiology, and biochemistry that lead to drastic reduction in plant biomass production and economic yield worldwide. To date, little is known about HS-responsive genes involved in thermotolerance mechanism in radish. In this study, a total of 6600 differentially expressed genes (DEGs) from the control and Heat24 cDNA libraries of radish were isolated by high-throughput sequencing. With Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis, some genes including MAPK, DREB, ERF, AP2, GST, Hsf, and Hsp were predominantly assigned in signal transductions, metabolic pathways, and biosynthesis and abiotic stress-responsive pathways. These pathways played significant roles in reducing stress-induced damages and enhancing heat tolerance in radish. Expression patterns of 24 candidate genes were validated by reverse-transcription quantitative PCR (RT-qPCR). Based mainly on the analysis of DEGs combining with the previous miRNAs analysis, the schematic model of HS-responsive regulatory network was proposed. To counter the effects of HS, a rapid response of the plasma membrane leads to the opening of specific calcium channels and cytoskeletal reorganization, after which HS-responsive genes are activated to repair damaged proteins and ultimately facilitate further enhancement of thermotolerance in radish. These results could provide fundamental insight into the regulatory network underlying heat tolerance in radish and facilitate further genetic manipulation of thermotolerance in root vegetable crops.
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Abbreviations
- HS:
-
Heat stress
- DEG:
-
Differentially expressed gene
- RNA-Seq:
-
RNA-sequencing
- RT-qPCR:
-
Reverse-transcription quantitative PCR
- KEGG:
-
Kyoto Encyclopedia of Genes and Genomes
- GO:
-
Gene ontology
- RPKM:
-
Reads per kilobase per million reads
- FDR:
-
False discovery rate
- TF:
-
Transcription factor
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Acknowledgments
This work was in part supported by grants from the National Key Technology Research and Development Program of China (2016YFD0100204-25), Jiangsu Agricultural Science and Technology Innovation Fund (JASTIF, CX(13)5082), and the Key Technology Research and Development Program of Jiangsu Province (BE2016379).
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RW and LL designed the experiments and drafted the manuscript. RW and YM planted radish seedlings, collected tissues, and prepared the mRNA library for Solexa sequencing. LX and JG participated in the design of the study. YM and YW performed the statistical analysis. XZ and LL reviewed and revised the manuscript. All authors read and approved the final manuscript.
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Wang, R., Mei, Y., Xu, L. et al. Genome-wide characterization of differentially expressed genes provides insights into regulatory network of heat stress response in radish (Raphanus sativus L.). Funct Integr Genomics 18, 225–239 (2018). https://doi.org/10.1007/s10142-017-0587-3
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DOI: https://doi.org/10.1007/s10142-017-0587-3